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MCL coexpression mm9:336: Difference between revisions

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|ontology_enrichment_uberon=UBERON:0002107!1.25e-10!22;UBERON:0007499!1.25e-10!22;UBERON:0006925!1.25e-10!22;UBERON:0009497!1.25e-10!22;UBERON:0000015!1.25e-10!22;UBERON:0002423!1.25e-10!22;UBERON:0006235!1.25e-10!22;UBERON:0008835!1.25e-10!22;UBERON:0003894!1.25e-10!22;UBERON:0004161!1.25e-10!22;UBERON:0008836!1.25e-10!22;UBERON:0009854!5.18e-10!23;UBERON:0009856!5.18e-10!23;UBERON:0004111!3.23e-09!122;UBERON:0002365!6.23e-09!25;UBERON:0002330!6.23e-09!25;UBERON:0000025!7.58e-09!114;UBERON:0001017!2.11e-08!73;UBERON:0002346!4.39e-08!64;UBERON:0003075!4.39e-08!64;UBERON:0007284!4.39e-08!64;UBERON:0001016!5.35e-08!75;UBERON:0004121!1.62e-07!95;UBERON:0000924!1.62e-07!95;UBERON:0006601!1.62e-07!95;UBERON:0001049!2.46e-07!52;UBERON:0005068!2.46e-07!52;UBERON:0006241!2.46e-07!52;UBERON:0007135!2.46e-07!52;UBERON:0001948!2.96e-07!5;UBERON:0002315!2.96e-07!5;UBERON:0010371!3.73e-07!73;UBERON:0000073!7.03e-07!54
|ontology_enrichment_uberon=UBERON:0002107!1.25e-10!22;UBERON:0007499!1.25e-10!22;UBERON:0006925!1.25e-10!22;UBERON:0009497!1.25e-10!22;UBERON:0000015!1.25e-10!22;UBERON:0002423!1.25e-10!22;UBERON:0006235!1.25e-10!22;UBERON:0008835!1.25e-10!22;UBERON:0003894!1.25e-10!22;UBERON:0004161!1.25e-10!22;UBERON:0008836!1.25e-10!22;UBERON:0009854!5.18e-10!23;UBERON:0009856!5.18e-10!23;UBERON:0004111!3.23e-09!122;UBERON:0002365!6.23e-09!25;UBERON:0002330!6.23e-09!25;UBERON:0000025!7.58e-09!114;UBERON:0001017!2.11e-08!73;UBERON:0002346!4.39e-08!64;UBERON:0003075!4.39e-08!64;UBERON:0007284!4.39e-08!64;UBERON:0001016!5.35e-08!75;UBERON:0004121!1.62e-07!95;UBERON:0000924!1.62e-07!95;UBERON:0006601!1.62e-07!95;UBERON:0001049!2.46e-07!52;UBERON:0005068!2.46e-07!52;UBERON:0006241!2.46e-07!52;UBERON:0007135!2.46e-07!52;UBERON:0001948!2.96e-07!5;UBERON:0002315!2.96e-07!5;UBERON:0010371!3.73e-07!73;UBERON:0000073!7.03e-07!54
|tfbs_overrepresentation_for_novel_motifs=0.10298,1.99759,0.0894988,0.126379,2.48625,0.830651,1.06974,1.67969,0.204405,0.000407305,0.163789,0.184641,0.0729759,1.10278,1.09912,0,0.346366,0.633115,1.98679,0.0169469,0.0719762,1.06232,0.200489,0.0411684,0.64228,0.220337,0.52165,0.147544,0.213668,2.3133,0.138971,0.430274,0.347532,0.124796,0.180514,0.368591,0.0352642,0.182233,0.527911,0.23234,1.43101,0.142092,0.516365,0.0484072,0.0171699,0.119992,0.77462,1.48173,0.157651,1.24465,0.332337,1.94026,0.190262,0.553844,0.569458,0.206047,0.85061,0.522443,0.284434,0.590972,0.413329,0.689471,4.66511,0.864326,0.213815,0.355898,0.693798,1.02539,0.409398,0.883956,0.0802912,0.636713,0.00124967,0.599674,0.0467969,0.422205,0.258557,0.274952,0.398928,1.39244,2.70637,0.360462,0.245495,0.881264,0.496926,0.203402,0.0001284,0.0323593,0.287376,1.18318,0.758722,0.501285,0.44118,0.0437656,0.0276224,0.02302,0.18465,0.44358,0.283814,0.00395542,0.0352891,0.430036,0.538321,0.332812,2.40749,0.141825,0.38053,0.154838,0.0761427,0.0727888,0.67046,0.539906,0.074417,0.500226,0.765328,0.639952,0.0018784,0.128566,0.917933,1.32042,0.604565,3.16092,0.22163,1.38,0.816304,0.40202,3.21801,0.4354,0.692394,0.0448279,0.523273,0.122184,0.665113,0.215582,7.40792,0.0672984,0.107493,0.142948,0.739526,1.5459,1.15207,0.698162,0.230233,0.439187,0.326804,1.39129,0.286009,1.50665,1.17696,0.0423084,0.0335138,0.000743183,0.555246,2.00309,0.615417,0.629009,0.240389,0.193809,1.12905,0.708025,0.748413,0.496177,0.402392,1.10435,0.86614,0.209743,0.0349117,0.183582,0.140368
|tfbs_overrepresentation_for_novel_motifs=0.10298,1.99759,0.0894988,0.126379,2.48625,0.830651,1.06974,1.67969,0.204405,0.000407305,0.163789,0.184641,0.0729759,1.10278,1.09912,0,0.346366,0.633115,1.98679,0.0169469,0.0719762,1.06232,0.200489,0.0411684,0.64228,0.220337,0.52165,0.147544,0.213668,2.3133,0.138971,0.430274,0.347532,0.124796,0.180514,0.368591,0.0352642,0.182233,0.527911,0.23234,1.43101,0.142092,0.516365,0.0484072,0.0171699,0.119992,0.77462,1.48173,0.157651,1.24465,0.332337,1.94026,0.190262,0.553844,0.569458,0.206047,0.85061,0.522443,0.284434,0.590972,0.413329,0.689471,4.66511,0.864326,0.213815,0.355898,0.693798,1.02539,0.409398,0.883956,0.0802912,0.636713,0.00124967,0.599674,0.0467969,0.422205,0.258557,0.274952,0.398928,1.39244,2.70637,0.360462,0.245495,0.881264,0.496926,0.203402,0.0001284,0.0323593,0.287376,1.18318,0.758722,0.501285,0.44118,0.0437656,0.0276224,0.02302,0.18465,0.44358,0.283814,0.00395542,0.0352891,0.430036,0.538321,0.332812,2.40749,0.141825,0.38053,0.154838,0.0761427,0.0727888,0.67046,0.539906,0.074417,0.500226,0.765328,0.639952,0.0018784,0.128566,0.917933,1.32042,0.604565,3.16092,0.22163,1.38,0.816304,0.40202,3.21801,0.4354,0.692394,0.0448279,0.523273,0.122184,0.665113,0.215582,7.40792,0.0672984,0.107493,0.142948,0.739526,1.5459,1.15207,0.698162,0.230233,0.439187,0.326804,1.39129,0.286009,1.50665,1.17696,0.0423084,0.0335138,0.000743183,0.555246,2.00309,0.615417,0.629009,0.240389,0.193809,1.12905,0.708025,0.748413,0.496177,0.402392,1.10435,0.86614,0.209743,0.0349117,0.183582,0.140368
|tfbs_overrepresentation_jaspar=MA0003.1;7.56031e-05,MA0004.1;2.53335,MA0006.1;0.0460466,MA0007.1;0.118104,MA0009.1;0.452863,MA0014.1;0.00847944,MA0017.1;1.20061,MA0019.1;0.30302,MA0024.1;0.415603,MA0025.1;0.660968,MA0027.1;2.04174,MA0028.1;2.1065,MA0029.1;0.397373,MA0030.1;0.402861,MA0031.1;0.373333,MA0038.1;0.220281,MA0040.1;0.463641,MA0041.1;0.0860551,MA0042.1;0.0797095,MA0043.1;0.53743,MA0046.1;0.483941,MA0048.1;0.00405237,MA0050.1;0.149886,MA0051.1;0.226644,MA0052.1;0.47061,MA0055.1;0.87451,MA0056.1;0,MA0057.1;0.430886,MA0058.1;3.91882,MA0059.1;12.1249,MA0060.1;0.0217699,MA0061.1;1.67349,MA0063.1;0,MA0066.1;0.212546,MA0067.1;0.764133,MA0068.1;0.147887,MA0069.1;10.5661,MA0070.1;0.462521,MA0071.1;0.892635,MA0072.1;0.455219,MA0073.1;0.000152641,MA0074.1;0.187944,MA0076.1;2.3599,MA0077.1;0.436665,MA0078.1;0.250627,MA0081.1;2.81596,MA0083.1;0.536725,MA0084.1;1.07765,MA0087.1;0.4987,MA0088.1;3.79694,MA0089.1;0,MA0090.1;0.107485,MA0091.1;0.134352,MA0092.1;0.107655,MA0093.1;6.30757,MA0095.1;0,MA0098.1;0,MA0100.1;0.180237,MA0101.1;0.610312,MA0103.1;1.74512,MA0105.1;3.04457,MA0106.1;0.256379,MA0107.1;1.22202,MA0108.2;0.320962,MA0109.1;0,MA0111.1;0.744051,MA0113.1;0.2357,MA0114.1;0.0290062,MA0115.1;0.539917,MA0116.1;0.0459718,MA0117.1;0.511373,MA0119.1;4.90772,MA0122.1;0.528896,MA0124.1;0.714453,MA0125.1;0.646095,MA0130.1;0,MA0131.1;0.299487,MA0132.1;0,MA0133.1;0,MA0135.1;0.569948,MA0136.1;0.201456,MA0139.1;1.64741,MA0140.1;0.180161,MA0141.1;3.75835,MA0142.1;0.361451,MA0143.1;0.247626,MA0144.1;1.23971,MA0145.1;0.45978,MA0146.1;0.0147284,MA0147.1;2.27347,MA0148.1;0.136186,MA0149.1;0.0894222,MA0062.2;2.15458,MA0035.2;0.18328,MA0039.2;6.39457e-09,MA0138.2;0.293335,MA0002.2;0.608868,MA0137.2;0.514948,MA0104.2;1.7913,MA0047.2;0.219739,MA0112.2;0.00977802,MA0065.2;0.00986741,MA0150.1;0.11804,MA0151.1;0,MA0152.1;0.219814,MA0153.1;0.584906,MA0154.1;0.0704998,MA0155.1;0.54083,MA0156.1;0.0637507,MA0157.1;0.8915,MA0158.1;0,MA0159.1;0.145533,MA0160.1;0.844124,MA0161.1;0,MA0162.1;4.63331e-05,MA0163.1;0.0779391,MA0164.1;0.201705,MA0080.2;0.212388,MA0018.2;0.208409,MA0099.2;0.288477,MA0079.2;1.27548e-07,MA0102.2;1.12863,MA0258.1;0.0253198,MA0259.1;0.864913,MA0442.1;0
}}
}}

Revision as of 11:35, 23 January 2013


Phase1 CAGE Peaks

 Short description
Mm9::chr14:70590577..70590581,-p@chr14:70590577..70590581
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Mm9::chr1:72895653..72895660,+p9@Igfbp2
Mm9::chr1:72895682..72895718,+p7@Igfbp2
Mm9::chr1:72895725..72895757,+p6@Igfbp2
Mm9::chr1:72895732..72895747,-p@chr1:72895732..72895747
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Mm9::chr1:72895774..72895788,+p@chr1:72895774..72895788
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Mm9::chr1:72895789..72895808,+p@chr1:72895789..72895808
+
Mm9::chr1:72895796..72895810,-p@chr1:72895796..72895810
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Mm9::chr1:72895819..72895843,+p@chr1:72895819..72895843
+
Mm9::chr1:72895848..72895864,+p@chr1:72895848..72895864
+
Mm9::chr1:72895881..72895885,-p@chr1:72895881..72895885
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Mm9::chr1:72896151..72896183,+p@chr1:72896151..72896183
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Mm9::chr1:72896186..72896195,+p@chr1:72896186..72896195
+
Mm9::chr1:72896200..72896228,+p@chr1:72896200..72896228
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Mm9::chr1:72898569..72898578,+p@chr1:72898569..72898578
+
Mm9::chr1:72898598..72898634,+p@chr1:72898598..72898634
+
Mm9::chr1:72898643..72898650,+p@chr1:72898643..72898650
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Mm9::chr1:72898658..72898669,+p@chr1:72898658..72898669
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Mm9::chr1:72898728..72898736,+p@chr1:72898728..72898736
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Mm9::chr1:72898749..72898763,+p@chr1:72898749..72898763
+
Mm9::chr1:72898789..72898796,+p@chr1:72898789..72898796
+
Mm9::chr1:72898790..72898821,-p@chr1:72898790..72898821
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Mm9::chr1:72898813..72898818,+p@chr1:72898813..72898818
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Mm9::chr6:88775838..88775842,-p@chr6:88775838..88775842
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Enriched pathways on this co-expression cluster<b>Summary:</b><br>Canonical pathway gene sets were compiled from Reactome, Wikipathways and KEGG. For the major signaling pathways, the transcriptionally-regulated genes (downstream targets) were obtained from Netpath. Combined, the canonical pathways and downstream targets totaled 489 human gene sets. The corresponding M. musculus gene sets were inferred by homology using the HomoloGene database. Enrichment for each of the canonical 489 pathways and gene sets included in the co-expression cluster was assessed by the hypergeometric probability. The resulting P values were also then adjusted by the Benjamini-Hochberg method for multiple comparisons.<br><b>Analyst: </b>Emmanuel Dimont<br><br>link to source dataset<br>data

no results for this coexpression

Relative expression of the co-expression cluster over median <br>Analyst:




Enriched sample ontology terms on this co-expression cluster<b>Summary:</b>To summarize promoter activities (expression profile of a TSS region) across ~1000 samples, we performed enrichment analysis based on FANTOM5 Sample Ontology (FF ontology). The question here is “in which type of samples the promoter is more active”. To answer this question, we compared expressions (TPMs) in the samples associated with a sample ontology term and the rest of the samples by using the Mann-Whitney rank sum test. To summarize ontologies enriched in this co-expression cluster, we ran the same analysis on an averaged expression profile of all promoters that make up. <b>Analyst:</b> Hideya Kawaji <br><br>links to source dataset<br><br>cell_data<br>uberon_data<br><br>

Uber Anatomy
Ontology termp-valuen
liver1.25e-1022
epithelial sac1.25e-1022
digestive gland1.25e-1022
epithelium of foregut-midgut junction1.25e-1022
anatomical boundary1.25e-1022
hepatobiliary system1.25e-1022
foregut-midgut junction1.25e-1022
hepatic diverticulum1.25e-1022
liver primordium1.25e-1022
septum transversum1.25e-1022
liver bud1.25e-1022
digestive tract diverticulum5.18e-1023
sac5.18e-1023
anatomical conduit3.23e-09122
exocrine gland6.23e-0925
exocrine system6.23e-0925
tube7.58e-09114
central nervous system2.11e-0873
neurectoderm4.39e-0864
neural plate4.39e-0864
presumptive neural plate4.39e-0864
nervous system5.35e-0875
ectoderm-derived structure1.62e-0795
ectoderm1.62e-0795
presumptive ectoderm1.62e-0795
neural tube2.46e-0752
neural rod2.46e-0752
future spinal cord2.46e-0752
neural keel2.46e-0752
regional part of spinal cord2.96e-075
gray matter of spinal cord2.96e-075
ecto-epithelium3.73e-0773
regional part of nervous system7.03e-0754


TFBS overrepresentation<b>Summary:</b>The values shown are the p-values for overrepresentation of the motif in this coexpression cluster. So a small p-value means a strong overrepresentation. <b>Analyst:</b> Michiel de Hoon <br><br>link to source data <br> Novel motifs <br>data <br><br> Jaspar motifs <br>data

Novel motifs




JASPAR motifs


Motifs-log10(p-value)
MA0003.17.56031e-05
MA0004.12.53335
MA0006.10.0460466
MA0007.10.118104
MA0009.10.452863
MA0014.10.00847944
MA0017.11.20061
MA0019.10.30302
MA0024.10.415603
MA0025.10.660968
MA0027.12.04174
MA0028.12.1065
MA0029.10.397373
MA0030.10.402861
MA0031.10.373333
MA0038.10.220281
MA0040.10.463641
MA0041.10.0860551
MA0042.10.0797095
MA0043.10.53743
MA0046.10.483941
MA0048.10.00405237
MA0050.10.149886
MA0051.10.226644
MA0052.10.47061
MA0055.10.87451
MA0056.10
MA0057.10.430886
MA0058.13.91882
MA0059.112.1249
MA0060.10.0217699
MA0061.11.67349
MA0063.10
MA0066.10.212546
MA0067.10.764133
MA0068.10.147887
MA0069.110.5661
MA0070.10.462521
MA0071.10.892635
MA0072.10.455219
MA0073.10.000152641
MA0074.10.187944
MA0076.12.3599
MA0077.10.436665
MA0078.10.250627
MA0081.12.81596
MA0083.10.536725
MA0084.11.07765
MA0087.10.4987
MA0088.13.79694
MA0089.10
MA0090.10.107485
MA0091.10.134352
MA0092.10.107655
MA0093.16.30757
MA0095.10
MA0098.10
MA0100.10.180237
MA0101.10.610312
MA0103.11.74512
MA0105.13.04457
MA0106.10.256379
MA0107.11.22202
MA0108.20.320962
MA0109.10
MA0111.10.744051
MA0113.10.2357
MA0114.10.0290062
MA0115.10.539917
MA0116.10.0459718
MA0117.10.511373
MA0119.14.90772
MA0122.10.528896
MA0124.10.714453
MA0125.10.646095
MA0130.10
MA0131.10.299487
MA0132.10
MA0133.10
MA0135.10.569948
MA0136.10.201456
MA0139.11.64741
MA0140.10.180161
MA0141.13.75835
MA0142.10.361451
MA0143.10.247626
MA0144.11.23971
MA0145.10.45978
MA0146.10.0147284
MA0147.12.27347
MA0148.10.136186
MA0149.10.0894222
MA0062.22.15458
MA0035.20.18328
MA0039.26.39457e-09
MA0138.20.293335
MA0002.20.608868
MA0137.20.514948
MA0104.21.7913
MA0047.20.219739
MA0112.20.00977802
MA0065.20.00986741
MA0150.10.11804
MA0151.10
MA0152.10.219814
MA0153.10.584906
MA0154.10.0704998
MA0155.10.54083
MA0156.10.0637507
MA0157.10.8915
MA0158.10
MA0159.10.145533
MA0160.10.844124
MA0161.10
MA0162.14.63331e-05
MA0163.10.0779391
MA0164.10.201705
MA0080.20.212388
MA0018.20.208409
MA0099.20.288477
MA0079.21.27548e-07
MA0102.21.12863
MA0258.10.0253198
MA0259.10.864913
MA0442.10
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